Literature DB >> 31384038

Step-defect guided delivery of DNA to a graphene nanopore.

Manish Shankla1, Aleksei Aksimentiev2.   

Abstract

Precision placement and transport of biomolecules are critical to many single-molecule manipulation and detection methods. One such method is nanopore sequencing, in which the delivery of biomolecules towards a nanopore controls the method's throughput. Using all-atom molecular dynamics, here we show that the precision transport of biomolecules can be realized by utilizing ubiquitous features of graphene surface-step defects that separate multilayer domains. Subject to an external force, we found that adsorbed DNA moved much faster down a step defect than up, and even faster along the defect edge, regardless of whether the motion was produced by a mechanical force or a solvent flow. We utilized this direction dependency to demonstrate a mechanical analogue of an electric diode and a system for delivering DNA molecules to a nanopore. The defect-guided delivery principle can be used for the separation, concentration and storage of scarce biomolecular species, on-demand chemical reactions and nanopore sensing.

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Year:  2019        PMID: 31384038      PMCID: PMC6863603          DOI: 10.1038/s41565-019-0514-y

Source DB:  PubMed          Journal:  Nat Nanotechnol        ISSN: 1748-3387            Impact factor:   39.213


  48 in total

1.  DNA base-specific modulation of microampere transverse edge currents through a metallic graphene nanoribbon with a nanopore.

Authors:  Kamal K Saha; Marija Drndić; Branislav K Nikolić
Journal:  Nano Lett       Date:  2011-12-15       Impact factor: 11.189

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Journal:  Science       Date:  2004-05-14       Impact factor: 47.728

3.  DNA imaged on a HOPG electrode surface by AFM with controlled potential.

Authors:  Ana Maria Oliveira Brett; Ana-Maria Chiorcea Paquim
Journal:  Bioelectrochemistry       Date:  2005-04       Impact factor: 5.373

4.  Molecule-hugging graphene nanopores.

Authors:  Slaven Garaj; Song Liu; Jene A Golovchenko; Daniel Branton
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-08       Impact factor: 11.205

5.  Rapid sequencing of individual DNA molecules in graphene nanogaps.

Authors:  Henk W Ch Postma
Journal:  Nano Lett       Date:  2010-02-10       Impact factor: 11.189

6.  VMD: visual molecular dynamics.

Authors:  W Humphrey; A Dalke; K Schulten
Journal:  J Mol Graph       Date:  1996-02

7.  Metallized DNA nanolithography for encoding and transferring spatial information for graphene patterning.

Authors:  Zhong Jin; Wei Sun; Yonggang Ke; Chih-Jen Shih; Geraldine L C Paulus; Qing Hua Wang; Bin Mu; Peng Yin; Michael S Strano
Journal:  Nat Commun       Date:  2013       Impact factor: 14.919

8.  Surface modification of graphene nanopores for protein translocation.

Authors:  Y P Shan; P B Tiwari; P Krishnakumar; I Vlassiouk; W Z Li; X W Wang; Y Darici; S M Lindsay; H D Wang; S Smirnov; J He
Journal:  Nanotechnology       Date:  2013-11-14       Impact factor: 3.874

9.  Detecting the translocation of DNA through a nanopore using graphene nanoribbons.

Authors:  F Traversi; C Raillon; S M Benameur; K Liu; S Khlybov; M Tosun; D Krasnozhon; A Kis; A Radenovic
Journal:  Nat Nanotechnol       Date:  2013-11-17       Impact factor: 39.213

10.  Graphene as a subnanometre trans-electrode membrane.

Authors:  S Garaj; W Hubbard; A Reina; J Kong; D Branton; J A Golovchenko
Journal:  Nature       Date:  2010-08-18       Impact factor: 49.962

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  4 in total

1.  Translocation of DNA through Ultrathin Nanoslits.

Authors:  Wayne Yang; Boya Radha; Adnan Choudhary; Yi You; Gangaiah Mettela; Andre K Geim; Aleksei Aksimentiev; Ashok Keerthi; Cees Dekker
Journal:  Adv Mater       Date:  2021-02-01       Impact factor: 30.849

Review 2.  Chiral Systems Made from DNA.

Authors:  David Winogradoff; Pin-Yi Li; Himanshu Joshi; Lauren Quednau; Christopher Maffeo; Aleksei Aksimentiev
Journal:  Adv Sci (Weinh)       Date:  2021-01-21       Impact factor: 16.806

Review 3.  Revealing DNA Structure at Liquid/Solid Interfaces by AFM-Based High-Resolution Imaging and Molecular Spectroscopy.

Authors:  Ewelina Lipiec; Kamila Sofińska; Sara Seweryn; Natalia Wilkosz; Marek Szymonski
Journal:  Molecules       Date:  2021-10-27       Impact factor: 4.411

4.  Ions and Water Dancing through Atom-Scale Holes: A Perspective toward "Size Zero".

Authors:  Jothi Priyanka Thiruraman; Paul Masih Das; Marija Drndić
Journal:  ACS Nano       Date:  2020-03-20       Impact factor: 18.027

  4 in total

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